{"id":"https://openalex.org/W2898191476","doi":"https://doi.org/10.1093/bib/bby096","title":"Copy number aberrations from Affymetrix SNP 6.0 genotyping data\u2014how accurate are commonly used prediction approaches?","display_name":"Copy number aberrations from Affymetrix SNP 6.0 genotyping data\u2014how accurate are commonly used prediction approaches?","publication_year":2018,"publication_date":"2018-10-10","ids":{"openalex":"https://openalex.org/W2898191476","doi":"https://doi.org/10.1093/bib/bby096","mag":"2898191476","pmid":"https://pubmed.ncbi.nlm.nih.gov/30351397"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bby096","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bby096","pdf_url":"https://academic.oup.com/bib/article-pdf/21/1/272/32376240/bby096.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/21/1/272/32376240/bby096.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010632475","display_name":"Adriana Pitea","orcid":null},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Adriana Pitea","raw_affiliation_strings":["Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","Research Unit Radiation Cytogenetics, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"Research Unit Radiation Cytogenetics, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057424346","display_name":"Ivan Kondofersky","orcid":null},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Ivan Kondofersky","raw_affiliation_strings":["Department of Mathematics, Technical University of Munich, Garching, Germany","Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Technical University of Munich, Garching, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056734417","display_name":"Steffen Sass","orcid":"https://orcid.org/0000-0001-8939-1084"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Steffen Sass","raw_affiliation_strings":["Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083128670","display_name":"Fabian J. Theis","orcid":"https://orcid.org/0000-0002-2419-1943"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Fabian J Theis","raw_affiliation_strings":["Department of Mathematics, Technical University of Munich, Garching, Germany","Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Technical University of Munich, Garching, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110833064","display_name":"Nikola S. Mueller","orcid":null},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Nikola S Mueller","raw_affiliation_strings":["Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050705404","display_name":"Kristian Unger","orcid":"https://orcid.org/0000-0002-0374-2320"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Kristian Unger","raw_affiliation_strings":["Clinical Cooperation Group Personalized Radiotherapy in Head and Neck Cancer, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany Nikola S. Mueller, Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","Research Unit Radiation Cytogenetics, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Clinical Cooperation Group Personalized Radiotherapy in Head and Neck Cancer, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany Nikola S. Mueller, Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"Research Unit Radiation Cytogenetics, Helmholtz Zentrum M\u00fcnchen, Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5050705404","https://openalex.org/A5110833064"],"corresponding_institution_ids":["https://openalex.org/I3018134672"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.7167,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.76459074,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"21","issue":"1","first_page":"272","last_page":"281"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.9969000220298767,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/confounding","display_name":"Confounding","score":0.724351704120636},{"id":"https://openalex.org/keywords/international-hapmap-project","display_name":"International HapMap Project","score":0.6430548429489136},{"id":"https://openalex.org/keywords/genotyping","display_name":"Genotyping","score":0.5881288647651672},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48263484239578247},{"id":"https://openalex.org/keywords/snp","display_name":"SNP","score":0.45859092473983765},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3752272427082062},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.3563976585865021},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3505629301071167},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.312760591506958},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.3032104969024658},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30277568101882935},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.26903235912323},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.24291154742240906},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.22107088565826416}],"concepts":[{"id":"https://openalex.org/C77350462","wikidata":"https://www.wikidata.org/wiki/Q1125472","display_name":"Confounding","level":2,"score":0.724351704120636},{"id":"https://openalex.org/C177580304","wikidata":"https://www.wikidata.org/wiki/Q1147298","display_name":"International HapMap Project","level":5,"score":0.6430548429489136},{"id":"https://openalex.org/C31467283","wikidata":"https://www.wikidata.org/wiki/Q912147","display_name":"Genotyping","level":4,"score":0.5881288647651672},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48263484239578247},{"id":"https://openalex.org/C139275648","wikidata":"https://www.wikidata.org/wiki/Q17134011","display_name":"SNP","level":5,"score":0.45859092473983765},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3752272427082062},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.3563976585865021},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3505629301071167},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.312760591506958},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.3032104969024658},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30277568101882935},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.26903235912323},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.24291154742240906},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.22107088565826416}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1093/bib/bby096","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bby096","pdf_url":"https://academic.oup.com/bib/article-pdf/21/1/272/32376240/bby096.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30351397","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30351397","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:push-zb.helmholtz-munich.de:54574","is_oa":true,"landing_page_url":"https://push-zb.helmholtz-munich.de/frontdoor.php?source_opus=54574","pdf_url":"https://push-zb.helmholtz-munich.de/deliver.php?id=22978","source":{"id":"https://openalex.org/S7407055352","display_name":"PuSH - Publication Server of Helmholtz Zentrum M\u00fcnchen","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief. Bioinform. 21, 272-281 (2020)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:mediatum.ub.tum.de:node/1554245","is_oa":true,"landing_page_url":"http://mediatum.ub.tum.de/node?id=1554245","pdf_url":null,"source":{"id":"https://openalex.org/S4377196330","display_name":"mediaTUM  (Technical University of Munich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I62916508","host_organization_name":"Technical University of Munich","host_organization_lineage":["https://openalex.org/I62916508"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"article"},{"id":"pmh:oai:opus-zb.helmholtz-muenchen.de:54574","is_oa":true,"landing_page_url":"https://push-zb.helmholtz-muenchen.de/frontdoor.php?source_opus=54574","pdf_url":null,"source":{"id":"https://openalex.org/S4377196115","display_name":"Site cant be reached","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief. Bioinform. 21, 272-281 (2020)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bby096","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bby096","pdf_url":"https://academic.oup.com/bib/article-pdf/21/1/272/32376240/bby096.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2953837900","display_name":null,"funder_award_id":"02NUK045A","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2898191476.pdf"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W1530219213","https://openalex.org/W1925165532","https://openalex.org/W1975813398","https://openalex.org/W1976526581","https://openalex.org/W1986241711","https://openalex.org/W2006288875","https://openalex.org/W2015876437","https://openalex.org/W2016661249","https://openalex.org/W2034197594","https://openalex.org/W2038120654","https://openalex.org/W2059300459","https://openalex.org/W2067826589","https://openalex.org/W2076918641","https://openalex.org/W2083870688","https://openalex.org/W2088592436","https://openalex.org/W2096020932","https://openalex.org/W2100801124","https://openalex.org/W2110553133","https://openalex.org/W2115919763","https://openalex.org/W2133174470","https://openalex.org/W2138601221","https://openalex.org/W2140968934","https://openalex.org/W2149681218","https://openalex.org/W2150677022","https://openalex.org/W2153056550","https://openalex.org/W2155707112","https://openalex.org/W2157117854","https://openalex.org/W2157852151","https://openalex.org/W2158698691","https://openalex.org/W2159595235","https://openalex.org/W2160444889","https://openalex.org/W2170490448","https://openalex.org/W2185207072","https://openalex.org/W2302575430","https://openalex.org/W2311921258","https://openalex.org/W2484065175","https://openalex.org/W2592622428","https://openalex.org/W2739366076","https://openalex.org/W3047398590","https://openalex.org/W4251146235","https://openalex.org/W4252684946"],"related_works":["https://openalex.org/W2164855536","https://openalex.org/W2093272809","https://openalex.org/W1997352593","https://openalex.org/W2143489661","https://openalex.org/W2070581548","https://openalex.org/W4281711902","https://openalex.org/W3206555169","https://openalex.org/W3016573916","https://openalex.org/W2013739566","https://openalex.org/W1978000554"],"abstract_inverted_index":{"Copy":[0],"number":[1,88],"aberrations":[2],"(CNAs)":[3],"are":[4],"known":[5],"to":[6,26],"strongly":[7,142],"affect":[8],"oncogenes":[9],"and":[10,90,111,116,138,156,175,179,186,211,214,232],"tumour":[11,31,81,136,162,196],"suppressor":[12],"genes.":[13],"Given":[14],"the":[15,40,64,83,91,104,139,144,148,170,201,222],"critical":[16],"role":[17],"CNAs":[18,29,38,97],"play":[19],"in":[20,36,63,99,192,234],"cancer":[21],"research,":[22],"it":[23],"is":[24,39,240],"essential":[25],"accurately":[27],"identify":[28],"from":[30],"genomes.":[32],"One":[33],"particular":[34],"challenge":[35],"finding":[37],"effect":[41],"of":[42,66,77,85,96,106,122,146,166,172,229],"confounding":[43,67,79],"variables.":[44,68],"To":[45],"address":[46],"this":[47],"issue,":[48],"we":[49,114],"assessed":[50,117],"how":[51],"commonly":[52],"used":[53],"CNA":[54,92,127,140,167,237],"identification":[55],"algorithms":[56],"perform":[57],"on":[58,131,200,221],"SNP":[59],"6.0":[60],"genotyping":[61],"data":[62,73,133,203,225],"presence":[65],"We":[69],"simulated":[70],"realistic":[71],"synthetic":[72,132],"with":[74,194],"varying":[75],"levels":[76],"three":[78],"variables-the":[80],"purity,":[82],"length":[84,165],"a":[86,100,205],"copy":[87],"region":[89],"burden":[93,141],"(the":[94],"percentage":[95],"present":[98],"profiled":[101],"genome)-and":[102],"evaluated":[103],"performance":[105,145,171],"OncoSNP,":[107,177],"ASCAT,":[108,173],"GenoCNA,":[109],"GISTIC":[110,233],"CGHcall.":[112],"Furthermore,":[113],"implemented":[115],"CGHcall*,":[118],"an":[119],"adjusted":[120],"version":[121],"CGHcall":[123,174],"accounting":[124],"for":[125],"high":[126,195],"burden.":[128],"Our":[129,198,218],"analysis":[130,199,220],"indicates":[134],"that":[135],"purity":[137],"influence":[143],"all":[147,161],"algorithms.":[149],"No":[150],"algorithm":[151],"can":[152],"correctly":[153],"find":[154],"lost":[155],"gained":[157],"genomic":[158],"regions":[159,168],"across":[160],"purities.":[163],"The":[164],"influenced":[169],"GISTIC.":[176],"GenoCNA":[178,212],"CGHcall*":[180,185,210,231],"showed":[181,188],"little":[182],"sensitivity.":[183],"Overall,":[184],"OncoSNP":[187],"reasonable":[189],"performance,":[190],"particularly":[191],"samples":[193],"purity.":[197],"HapMap":[202],"revealed":[204,226],"good":[206],"overlap":[207],"between":[208],"CGHcall,":[209,230],"results":[213,228],"experimentally":[215],"validated":[216],"data.":[217],"exploratory":[219],"TCGA":[223],"HNSCC":[224,236],"plausible":[227],"consensus":[235],"regions.":[238],"Code":[239],"available":[241],"at":[242],"https://github.com/adspit/PASCAL.":[243]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-05-22T06:13:13.366637","created_date":"2025-10-10T00:00:00"}